Library Sizes ranged between 47,876,661 and 72,107,816 reads.
Read totals for each library. Duplicated reads are conventionally an high overestimate at this point.
Summary of FastQC flags for each parameter
Heatmap showing mean base qualities for each library
Heatmap showing mean sequence qualities for each library
Heatmap of summed base distributions along each read
GC Content Heatmap normalised to theoretical GC content in the Hsapiens Genome
GC Content Distributions for all reads showing theoretical GC content from the Hsapiens Genome
Universal Adapter Content
Total overrepresented sequences for each library
## Overrepresented_sequences missing from 1_Ps2Ex3M1_Heter_6month_07_07_2016_F3_80_Fem.bam## Overrepresented_sequences missing from 10_Ps2Ex3M1_WT_6month_07_07_2016_F3_86_Fem.bam## Overrepresented_sequences missing from 11_Ps2Ex3M1_WT_6month_07_07_2016_F3_88_Fem.bam## Overrepresented_sequences missing from 12_Ps2Ex3M1_WT_6month_07_07_2016_F3_95_Fem.bam## Overrepresented_sequences missing from 2_Ps2Ex3M1_Heter_6month_07_07_2016_F3_81_Fem.bam## Overrepresented_sequences missing from 3_Ps2Ex3M1_Heter_6month_07_07_2016_F3_84_Fem.bam## Overrepresented_sequences missing from 4_Ps2Ex3M1_Heter_6month_07_07_2016_F3_89_Fem.bam## Overrepresented_sequences missing from 5_Ps2Ex3M1_Hom_6month_07_07_2016_F3_78_Fem.bam## Overrepresented_sequences missing from 6_Ps2Ex3M1_Hom_6month_07_07_2016_F3_82_Fem.bam## Overrepresented_sequences missing from 7_Ps2Ex3M1_Hom_6month_07_07_2016_F3_83_Fem.bam## Overrepresented_sequences missing from 8_Ps2Ex3M1_Hom_6month_07_07_2016_F3_85_Fem.bam## Overrepresented_sequences missing from 9_Ps2Ex3M1_WT_6month_07_07_2016_F3_79_Fem.bamR version 4.3.2 (2023-10-31)
Platform: x86_64-pc-linux-gnu (64-bit)
locale: LC_CTYPE=en_AU.UTF-8, LC_NUMERIC=C, LC_TIME=en_AU.UTF-8, LC_COLLATE=en_AU.UTF-8, LC_MONETARY=en_AU.UTF-8, LC_MESSAGES=en_AU.UTF-8, LC_PAPER=en_AU.UTF-8, LC_NAME=C, LC_ADDRESS=C, LC_TELEPHONE=C, LC_MEASUREMENT=en_AU.UTF-8 and LC_IDENTIFICATION=C
attached base packages: stats, graphics, grDevices, utils, datasets, methods and base
other attached packages: pander(v.0.6.5), DT(v.0.30), scales(v.1.2.1), readr(v.2.1.4), dplyr(v.1.1.3), stringr(v.1.5.0), magrittr(v.2.0.3), ngsReports(v.2.4.0), tibble(v.3.2.1), patchwork(v.1.1.3), ggplot2(v.3.4.4), BiocGenerics(v.0.48.1), BiocCheck(v.1.38.0), devtools(v.2.4.5) and usethis(v.2.2.2)
loaded via a namespace (and not attached): DBI(v.1.1.3), bitops(v.1.0-7), RBGL(v.1.78.0), remotes(v.2.4.2.1), rlang(v.1.1.1), compiler(v.4.3.2), RSQLite(v.2.3.2), reshape2(v.1.4.4), callr(v.3.7.3), vctrs(v.0.6.4), profvis(v.0.3.8), pkgconfig(v.2.0.3), crayon(v.1.5.2), fastmap(v.1.1.1), dbplyr(v.2.4.0), XVector(v.0.42.0), ellipsis(v.0.3.2), labeling(v.0.4.3), utf8(v.1.2.4), biocViews(v.1.70.0), promises(v.1.2.1), rmarkdown(v.2.25), tzdb(v.0.4.0), sessioninfo(v.1.2.2), graph(v.1.80.0), ps(v.1.7.5), purrr(v.1.0.2), bit(v.4.0.5), xfun(v.0.41), zlibbioc(v.1.48.0), cachem(v.1.0.8), GenomeInfoDb(v.1.38.0), jsonlite(v.1.8.7), blob(v.1.2.4), later(v.1.3.1), parallel(v.4.3.2), prettyunits(v.1.2.0), R6(v.2.5.1), RColorBrewer(v.1.1-3), bslib(v.0.5.1), stringi(v.1.7.12), pkgload(v.1.3.3), jquerylib(v.0.1.4), lubridate(v.1.9.3), Rcpp(v.1.0.11), knitr(v.1.45), zoo(v.1.8-12), IRanges(v.2.36.0), BiocBaseUtils(v.1.4.0), httpuv(v.1.6.12), timechange(v.0.2.0), tidyselect(v.1.2.0), yaml(v.2.3.7), rstudioapi(v.0.15.0), stringdist(v.0.9.10), codetools(v.0.2-19), miniUI(v.0.1.1.1), RUnit(v.0.4.32), curl(v.5.1.0), processx(v.3.8.2), pkgbuild(v.1.4.2), plyr(v.1.8.9), lattice(v.0.22-5), Biobase(v.2.62.0), shiny(v.1.7.5.1), withr(v.2.5.2), evaluate(v.0.23), urlchecker(v.1.0.1), BiocFileCache(v.2.10.1), Biostrings(v.2.70.1), pillar(v.1.9.0), BiocManager(v.1.30.22), filelock(v.1.0.2), stats4(v.4.3.2), plotly(v.4.10.3), generics(v.0.1.3), RCurl(v.1.98-1.12), hms(v.1.1.3), S4Vectors(v.0.40.1), munsell(v.0.5.0), xtable(v.1.8-4), glue(v.1.6.2), lazyeval(v.0.2.2), tools(v.4.3.2), data.table(v.1.14.8), forcats(v.1.0.0), fs(v.1.6.3), XML(v.3.99-0.14), grid(v.4.3.2), tidyr(v.1.3.0), crosstalk(v.1.2.0), colorspace(v.2.1-0), GenomeInfoDbData(v.1.2.11), cli(v.3.6.1), fansi(v.1.0.5), viridisLite(v.0.4.2), ggdendro(v.0.1.23), gtable(v.0.3.4), sass(v.0.4.7), digest(v.0.6.33), farver(v.2.1.1), htmlwidgets(v.1.6.2), memoise(v.2.0.1), htmltools(v.0.5.6.1), lifecycle(v.1.0.3), httr(v.1.4.7), mime(v.0.12), bit64(v.4.0.5) and MASS(v.7.3-60)